Influenza Virus: Methods and Protocols

Front Matter ....Pages i-xvi
 Understanding Influenza  (Edward C. Hutchinson, Yohei Yamauchi)....Pages 1-21
 Clinical Diagnosis of Influenza  (Yoshinori Ito)....Pages 23-31
 Influenza A Virus Genetic Tools: From Clinical Sample to Molecular Clone  (Stéphanie Anchisi, Ana Rita Gonçalves, Béryl Mazel-Sanchez, Samuel Cordey, Mirco Schmolke)....Pages 33-58
 Propagation and Titration of Influenza Viruses  (Umut Karakus, Michel Crameri, Caroline Lanz, Emilio Yángüez)....Pages 59-88
 Purification and Proteomics of Influenza Virions  (Edward C. Hutchinson, Monika Stegmann)....Pages 89-120
 Haploid Screening for the Identification of Host Factors in Virus Infection  (Evelyn Fessler, Lucas T. Jae)....Pages 121-137
 Phenotypic Lentivirus Screens to Identify Antiviral Single Domain Antibodies  (Florian Ingo Schmidt)....Pages 139-158
 Deciphering Virus Entry with Fluorescently Labeled Viral Particles  (Anja B. Hoffmann, Magalie Mazelier, Psylvia Léger, Pierre-Yves Lozach)....Pages 159-183
 Quantitative RT-PCR Analysis of Influenza Virus Endocytic Escape  (Wen-Chi Su, Michael M. C. Lai)....Pages 185-194
 Single-Molecule Sensitivity RNA FISH Analysis of Influenza Virus Genome Trafficking  (Yi-ying Chou, Timothée Lionnet)....Pages 195-211
 3D Electron Microscopy (EM) and Correlative Light Electron Microscopy (CLEM) Methods to Study Virus-Host Interactions  (Inés Romero-Brey)....Pages 213-236
 Correlative Light and Electron Microscopy of Influenza Virus Entry and Budding  (Lorna Hodgson, Paul Verkade, Yohei Yamauchi)....Pages 237-260
 Influenza Virus-Liposome Fusion Studies Using Fluorescence Dequenching and Cryo-electron Tomography  (Long Gui, Kelly K. Lee)....Pages 261-279
 Metal-Tagging Transmission Electron Microscopy and Immunogold Labeling on Tokuyasu Cryosections to Image Influenza A Virus Ribonucleoprotein Transport and Packaging  (Martin Sachse, Isabel Fernández de Castro, Guillaume Fournier, Nadia Naffakh, Cristina Risco)....Pages 281-301
 Live Imaging of Influenza Viral Ribonucleoproteins Using Light-Sheet Microscopy  (Amar R. Bhagwat, Valerie Le Sage, Seema S. Lakdawala)....Pages 303-327
 Purification of Unanchored Polyubiquitin Chains from Influenza Virions  (Yasuyuki Miyake, Patrick Matthias, Yohei Yamauchi)....Pages 329-342
 Assays to Measure the Activity of Influenza Virus Polymerase  (Aartjan J. W. te Velthuis, Jason S. Long, Wendy S. Barclay)....Pages 343-374
 In Vitro Models to Study Influenza Virus and Staphylococcus aureus Super-Infection on a Molecular Level  (Christin Bruchhagen, Andre van Krüchten, Carolin Klemm, Stephan Ludwig, Christina Ehrhardt)....Pages 375-386
 Infection of Cultured Mammalian Cells with Aerosolized Influenza Virus  (Hannah M. Creager, Terrence M. Tumpey, Taronna R. Maines, Jessica A. Belser)....Pages 387-399
 Animal Models in Influenza Research  (Johanneke D. Hemmink, Catherine J. Whittaker, Holly A. Shelton)....Pages 401-430
 Measuring Influenza Virus Infection Using Bioluminescent Reporter Viruses for In Vivo Imaging and In Vitro Replication Assays  (Erik A. Karlsson, Victoria A. Meliopoulos, Vy Tran, Chandra Savage, Brandi Livingston, Stacey Schultz-Cherry et al.)....Pages 431-459
 Selection of Antigenically Advanced Variants of Influenza Viruses  (Gabriele Neumann, Shufang Fan, Yoshihiro Kawaoka)....Pages 461-486
 Assessment of Influenza Virus Hemagglutinin Stalk-Specific Antibody Responses  (Wen-Chun Liu, Raffael Nachbagauer, Florian Krammer, Randy A. Albrecht)....Pages 487-511
 Analyses of Cellular Immune Responses in Ferrets Following Influenza Virus Infection  (Anthony T. DiPiazza, Katherine A. Richards, Wen-Chun Liu, Randy A. Albrecht, Andrea J. Sant)....Pages 513-530
 Parameter Estimation in Mathematical Models of Viral Infections Using R  (Van Kinh Nguyen, Esteban A. Hernandez-Vargas)....Pages 531-549
 Software for Characterizing the Antigenic and Genetic Evolution of Human Influenza Viruses  (Susanne Reimering, Alice C. McHardy)....Pages 551-565
 Clinical Trials of Influenza Vaccines: Special Challenges  (Adam Finn)....Pages 567-573
 The Silver Lining in Gain-of-Function Experiments with Pathogens of Pandemic Potential  (Michael J. Imperiale, Don Howard, Arturo Casadevall)....Pages 575-587
 Why Do Exceptionally Dangerous Gain-of-Function Experiments in Influenza?  (Marc Lipsitch)....Pages 589-608
 How Computational Models Enable Mechanistic Insights into Virus Infection  (Ivo F. Sbalzarini, Urs F. Greber)....Pages 609-631
Back Matter ....Pages 633-663